Introduction

< Explain >

Goals

< what are you trying to achieve >


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Learn how to communicate with cbioportal and study what is available.

Find you TCGA ID

  • Important here: you need to replace this with your own assigned TCGA ID. For this report I’m using TCGA-BH-A0GY

Clinical data.

Now that we have a basic understanding of what is available lets go and download the actual data.

mutation table

Identifying pathogenic mutations.

Now that the data has been succesfully donwloaded and annotated lets study it a bit more.

Besides Mutation data we also downloaded expression RNAseq data in the form of TPM.

demo only

  • Please see assignmet.
  • Figure out what figures to put and what to leave out.
  • know your myid and where it all fits.

RNAseq Volcano

Heatmap

GSEA summary1

GO 1

GO 2

mutations

CNA